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Is it necessary to cancel realignment for germline snp and indel calling in gVCF mode ?

YingLiuYingLiu ChinaMember

Hi ,
I find that the realignment step of Best Practice has been canceled!
I do not know why ?
the following link is the Best Practice page I read.
https://software.broadinstitute.org/gatk/best-practices/bp_3step.php?case=GermShortWGS

Best Wishes

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